CLC Main Workbench 5.0

CLC Main Workbench 5.0

User Rating: Fair (0.00/5)

License:
Shareware
Price:
USD 120.00
Developer:
CLC bio A/S|More programs
OS:
Updated:
January 30th, 2012

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CLC Main Workbench 5.0 Description

CLC Main Workbench 5.0 is made to be a smart and proper program which creates a software environment enabling users to make a large number of advanced protein sequence analyses, combined with smooth data management, and excellent graphical viewing and output options. 

Major Features:
  1. Project and data management:
    • Full integration of data input, data management, calculation results, and data export
    • Detailed history log
    • All types of files can be saved in local projects, and launched from the program
    • Import and export of data in a large number of file formats
    • Option of working in several active workspaces at a time, enabling simultaneous work on multiple projects
    • Import of trace data files and quality scores from automated DNA sequening machines using Standard Chromatogram Format, ABI formats and PHD format (PHRED)
    • Alpha-helices and beta-sheets shown as annotations on the sequence.
    • 3D molecule view
    • Transmembrame helix prediction
    • Antigenicity
    • Secondary protein structure prediction
    • PFAM domain search
    • Web-based prediction of signal peptides and their cleavage sites (SignalP - the best tool available)
    • Hydrophobicity analyses and graphs
    • Protein charge analysis and graphs
    • Reverse translation from protein to gene (a number of translation tables)
    • Interactive translations of DNA and RNA to protein (both single sequences and alignments)
    • Proteolytic cleavage detection
    • Report of protein statistics (one or more proteins in each report)
    • Comprehensive report including a range of protein analyses in one document
    • Integrated UniProt searches (Swiss-Prot/TrEMBL)
    • Web-based lookup of sequence data in the UniProt and NCBI databases, as well as Google
  2. Bioinformatics features in Protein Workbench:
    • Flexible viewing of circular molecules.
    • Editor for graphically and algorithmically advanced primer design
    • Assembly of DNA sequence data
    • Molecular cloning
    • Automatic SNP annotation of sequences
    • Search and discovery of DNA patterns
    • Local complexity region analyses
    • Reverse translation from protein to gene, based on translation tables from a number of species
    • Advanced restriction enzyme analysis and management
    • Dot plot based analyses
    • Short form DNA statistics including a number of characteristics of a given molecule
    • NCBI sequence data search
    • Access to web info from PubMed
  3. Bioinformatics features in Gene Workbench:
    • DNA, RNA and protein sequence editor displaying both linear and circular molecules
    • DNA, RNA, and protein alignment editor
    • Interactive logos along both DNA, RNA and Protein alignments
    • Batch processing of analyses on multiple sequences in one work-step
    • Motif search
    • Pattern discovery (unknown patterns)
    • Advanced re-alignment and fix-point alignment option
    • Sequence logo graphs along DNA, RNA, and protein alignments
    • Manual annotation of sequences
    • Integrated PubMed searches
    • Web-based sequence search using BLAST
    • Dot plot based analyses
    • Local complexity region analyses and complexity plots
    • Gap fraction graphs
    • G/C content analysis and graphs
  4. Other bioinformatics features:
    • Advanced BLAST view
    • Advanced graphs view
    • Advanced histogram view
    • Advanced dot plot view
    • Search for characteristics in sequences and alignments
  5. Viewing and reporting:
Requirements:
  • 256 MB RAM required
  • 512 MB RAM recommended
  • 1024 x 768 display recommended
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CLC Main Workbench 5.0 Screenshots

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